Activity

From 07/27/2013 to 08/25/2013

05:22 pm Feature #36: add Brassica Rapa genome: forget the screenshot... Daofeng Li
05:20 pm Feature #36: add Brassica Rapa genome: added to test server.
While I got a Json syntax error when using chromosome to jump to another location.
the er... Daofeng Li

03:06 pm Feature #36: add Brassica Rapa genome: Have problem with downloading of the data.
Tried registration few times, was not able to access the data. Daofeng Li
09:15 am Feature #35: add common bean genome: fixed Daofeng Li
04:01 am Feature #36 (Closed): add Brassica Rapa genome: http://brassicadb.org/brad/downloadOverview.php Xin Zhou
03:58 am Feature #35: add common bean genome: use "common bean" instead of "commonbean" for species name
Pay attention to spelling! Xin Zhou

10:02 pm Feature #34: add soybean genome: Thanks, fixed! Daofeng Li
10:02 pm Feature #35: add common bean genome: Thanks, fixed! Daofeng Li
09:27 pm Feature #35: add common bean genome: same problem as soybean genome, please remove trailing comma from "defaultScaffold" Xin Zhou
09:07 pm Feature #34: add soybean genome: thanks a lot!
Scaffold listing is not shown (click blue coordinate button, choose "zoom into a chrom"), please rem... Xin Zhou

12:30 pm Feature #35: add common bean genome: added to test Daofeng Li
12:27 pm Browser Metadata Revision 52e54a06: add soybean and commonbean, fix mm10 decor link: Daofeng Li
12:27 pm Revision 52e54a06: add soybean and commonbean, fix mm10 decor link: Daofeng Li

06:17 pm Feature #34: add soybean genome: * soybean added to test.
* Could you please review and let me know your suggestions? Daofeng Li
08:36 am Feature #35 (Closed): add common bean genome: genome information source:
ftp://ftp.jgi-psf.org/pub/compgen/phytozome/v9.0/Pvulgaris/assembly/ Xin Zhou
08:35 am Feature #34 (Closed): add soybean genome: genome information source:
ftp://ftp.jgi-psf.org/pub/compgen/phytozome/v9.0/Gmax/assembly/
requested by a soybe... Xin Zhou

10:57 pm Feature #33 (New): batch GEO id output: * I was thinking a function like output all the GEO id of the tracks currently displayed
* It might be useful for us... Daofeng Li

09:32 am Bug #32 (Closed): right click twice caused background color change: closed due to not a real bug. Daofeng Li
09:21 am Bug #32: right click twice caused background color change: * I agree with you, it should be related to web browsers.
* anyway, I tested again at Mac, only reproduce it at Chro... Daofeng Li
07:13 am Bug #32: right click twice caused background color change: I can't reproduce it, it should be a issue with web browser, not the genome browser Xin Zhou

11:24 pm Bug #32 (Closed): right click twice caused background color change: * might be not a bug while it just happened on my computer
* I am using Google Chrome in Windows 7
* open browser, ... Daofeng Li
07:25 pm Bug #31 (Resolved): Cannot refresh Tabix index file: failed to properly reconstruct path of cached tabix index file
suppose a track is http://domain.com/path/to/file.g... Xin Zhou
07:22 pm Bug #31 (Closed): Cannot refresh Tabix index file: Cannot refresh Tabix index file Xin Zhou
02:59 pm washugb v23 release: We have applied version 23 of washugb code to our public servers today.
h2. Updates:
## custom categorical trac... Daofeng Li
01:28 pm Browser Metadata Revision 71d28e6f: update with v23: Daofeng Li
01:28 pm Revision 71d28e6f: update with v23: Daofeng Li

04:50 pm Feature #30 (New): bam track (full) view range limit: * in UCSC browser, when you zoom out like 1/4 chromosome range, the repeatmasker tracks will show 'zoom in to <= 10,0... Daofeng Li

09:39 pm Bug #29 (Closed): make url didn't save secondary panel: solved Daofeng Li

11:46 pm Bug #29 (Closed): make url didn't save secondary panel: * just open a secondary panel
* choose make url, click the url navigate to a new window, the secondary panel was not... Daofeng Li
11:43 pm Feature #28 (New): add time information for session and status: * just think it might be useful to add time information to the session and status in saved session Daofeng Li
11:38 pm Bug #27 (Closed): retrieve session with custom categorical track error: Daofeng Li
11:37 pm Bug #24 (Closed): rule display problem when open secondary panel: Daofeng Li
11:37 pm Bug #24: rule display problem when open secondary panel: solved and closed. Daofeng Li
11:36 pm Bug #27: retrieve session with custom categorical track error: confirmed solved and closed. Daofeng Li
02:53 pm Bug #27: retrieve session with custom categorical track error: I am still getting same error on hg18.
Your session above works.
the session: XivUTiiNel was I just created.
I als... Daofeng Li
01:40 pm Bug #27 (Resolved): retrieve session with custom categorical track error: code has been changed and your trial session has gone invalid
try this one on hg18: yT9pbEppjc Xin Zhou
12:59 pm Bug #27 (Closed): retrieve session with custom categorical track error: * steps to reproduce:
## open hg18 default tracks
## add the example custom categorical track
## save session
#... Daofeng Li

10:17 am Bug #26 (Closed): categorical track submit json error: confirmed solved.
Also the hub works now. Daofeng Li
08:56 am Bug #26 (Resolved): categorical track submit json error: Xin Zhou
08:53 am Bug #26 (Closed): categorical track submit json error: * use the example url for hg18 and hg19 respectively
## hg18: http://epgg-test.wustl.edu/cc.gz
## hg19: http://vi... Daofeng Li
07:50 am Feature #14 (Resolved): Custom categorical track: Xin Zhou
07:49 am Feature #25: Quick capture of the central canvas: very nice attempt! Xin Zhou

11:54 pm Feature #25 (New): Quick capture of the central canvas: * I have tried developing a plugin for quick capture the central canvas as a PNG figure
* enable this plugin is easy... Daofeng Li

02:14 pm Feature #14: Custom categorical track: Do you mind put this issue to a higher priority? Thanks. Daofeng Li

09:49 pm Bug #24 (Closed): rule display problem when open secondary panel: * little display problem
* adjust the rule to screen wide
* open secondary panel, you will found the rule still acr... Daofeng Li
12:15 pm Bug #18 (Closed): embed example 2 from test not working: Daofeng Li
12:14 pm Feature #19 (Closed): new url parameter for public hub: Daofeng Li
12:14 pm Bug #12 (Closed): message after datahub submission confusion: Daofeng Li
12:13 pm Bug #20 (Closed): track information display problem: Daofeng Li
12:13 pm Bug #22 (Closed): no thing happens when click information after right click on refgene track: Daofeng Li
12:13 pm Bug #23 (Closed): metadata colormap not added for public hub by url parameter: Daofeng Li

12:24 pm washugb v22 release: We have applied v22 source code to our public servers.
h2. updates:
Please see our blog plots for details:
#... Daofeng Li
07:10 am Bug #23 (Resolved): metadata colormap not added for public hub by url parameter: Use "metadata" parameter in URL to add terms to colormap. Xin Zhou

04:48 pm Bug #23 (Closed): metadata colormap not added for public hub by url parameter: * if access the public hub by url parameter, will found the meta colormap was not added Daofeng Li
03:52 pm Feature #19 (Resolved): new url parameter for public hub: Thanks for the suggestion! See this example: http://epgg-test.wustl.edu/browser/?genome=hg18&publichub=mm1s Xin Zhou
03:38 pm Bug #22 (Resolved): no thing happens when click information after right click on refgene track: Xin Zhou
03:38 pm Bug #20 (Resolved): track information display problem: Xin Zhou
03:37 pm Bug #12 (Resolved): message after datahub submission confusion: Xin Zhou

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